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rna-seq analysis module in clc genomics workbench  (CLC Bio)

 
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    Structured Review

    CLC Bio rna-seq analysis module in clc genomics workbench
    Rna Seq Analysis Module In Clc Genomics Workbench, supplied by CLC Bio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/rna-seq+analysis+module/rna+seq+module+clc+genomic+workbench/pmc04742245-119-24-29
    Average 90 stars, based on 1 article reviews
    rna-seq analysis module in clc genomics workbench - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    other:

    Article Title: The transcriptome of Mycobacterium tuberculosis in a lipid-rich dormancy model through RNAseq analysis
    Article Snippet: To quantify gene expression, the RNA-seq Analysis tool from the CLC Genomics Workbench 9.0.1 software (CLC Bio, Aarhus, Denmark) was used to map the reads to gene regions only with strand-specificity set to reverse and default settings.

    Article Title: A high-throughput sequencing approach identifies immunotherapeutic targets for bacterial meningitis in neonates
    Article Snippet: All sequences retrieved from the Illumina reactions were trimmed to eliminate those reads with quality scores less than 0·05 and/or sequences with ambiguous nucleotides., Data were analyzed using the RNA-seq module of the Bioinformatics Workbench software package (CLC) ( http://www.clcbio.com/index.php?id=1240 ).

    Article Title: Band-based similarity indices for gene expression classification and clustering
    Article Snippet: The trimmed RNA-Seq reads were mapped against gene regions and transcripts were annotated using the RNA-Seq Analysis tool CLC Bio, version 6.0.1; the final processed files contained RPKM values for 19137 genes.

    Article Title: EFE-Mediated Ethylene Synthesis Is the Major Pathway in the Citrus Postharvest Pathogen Penicillium digitatum during Fruit Infection
    Article Snippet: RNA-seq analysis was conducted using the RNA-seq module of CLC Genomics Workbench software v5.5.1 (CLC bio, Aarhus, Denmark).

    RNA sequencing:

    Article Title: Embryonic microRNAs are essential for bovine preimplantation embryo development
    Article Snippet: .. Reads from each sample ( ) were trimmed (first 9 bp removed) and mapped to the ARS-UCD B. taurus reference genome (annotation 1.2.97) using the RNA-Seq tool in CLC Genomics Workbench (CLC Bio, which calculated gene-expression levels as RPKM. ..

    Article Title: Aspergillus flavus aswA, a gene homolog of Aspergillus nidulans oefC, regulates sclerotial development and biosynthesis of sclerotium-associated secondary metabolites.
    Article Snippet: Accepted Manuscript Aspergillus flavus aswA, a gene homolog of Aspergillus nidulans oefC, regulates sclerotial development and biosynthesis of sclerotium-associated secondary metabolites Perng-Kuang Chang, Leslie L. Scharfenstein, Robert W. Li, Natalia ArroyoManzanares, Sarah De Saeger, José Diana Di Mavungu PII: S1087-1845(17)30069-5 DOI: http://dx.doi.org/10.1016/j.fgb.2017.04.006 Reference: YFGBI 3053 To appear in: Fungal Genetics and Biology Received Date: 7 March 2017 Revised Date: 4 April 2017 Accepted Date: 21 April 2017 Please cite this article as: Chang, P-K., Scharfenstein, L.L., Li, R.W., Arroyo-Manzanares, N., De Saeger, S., Diana Di Mavungu, J., Aspergillus flavus aswA, a gene homolog of Aspergillus nidulans oefC, regulates sclerotial development and biosynthesis of sclerotium-associated secondary metabolites, Fungal Genetics and Biology (2017), doi: http://dx.doi.org/10.1016/j.fgb.2017.04.006 This is a PDF file of an unedited manuscript that has been accepted for publication.. As a service to our customers we are providing this early version of the manuscript.. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form.

    Expressing:

    Article Title: Ammonia Oxidation and Nitrite Reduction in the Verrucomicrobial Methanotroph Methylacidiphilum fumariolicum SolV
    Article Snippet: .. Expression analysis was performed with the RNA-seq Analysis tool from the CLC Genomic Work bench software (version 7.0.4, CLC-Bio, Aarhus, Denmark). ..

    RNA Sequencing:

    Article Title: Ammonia Oxidation and Nitrite Reduction in the Verrucomicrobial Methanotroph Methylacidiphilum fumariolicum SolV
    Article Snippet: .. Expression analysis was performed with the RNA-seq Analysis tool from the CLC Genomic Work bench software (version 7.0.4, CLC-Bio, Aarhus, Denmark). ..

    Article Title: Histone acetyltransferase GCN5 is essential for heat stress-responsive gene activation and thermotolerance in Arabidopsis.
    Article Snippet: Paired- © 2015 The Authors The Plant Journal © 2015 John Wiley & Sons Ltd, The Plant Journal, (2015), 84, 1178–1191 end sequencing libraries with a mean insert size of 200 bp were prepared using a TruSeq RNA sample preparation kit (Illumina, http://www.illumina.com/) and were sequenced on a HiSeq 2500 ultra-high-throughput sequencing system (Illumina) according to the manufacturer’s instructions. .. Data obtained via Illumina sequencing were processed, filtered and normalized using the Illumina pipeline (http://www.illumina.com) to generate fastq files, which were then analyzed using the RNA-seq module of the CLC Genomic Workbench (http://www.clcbio.com). ..

    Software:

    Article Title: Ammonia Oxidation and Nitrite Reduction in the Verrucomicrobial Methanotroph Methylacidiphilum fumariolicum SolV
    Article Snippet: .. Expression analysis was performed with the RNA-seq Analysis tool from the CLC Genomic Work bench software (version 7.0.4, CLC-Bio, Aarhus, Denmark). ..



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    Summary of processing and mapping statistics of RNA-Seq reads from teneral female G. pallidipes gut and carcass 24 or 48 h post-challenge with T. b. brucei

    Journal: Parasites & Vectors

    Article Title: Tsetse fly ( Glossina pallidipes) midgut responses to Trypanosoma brucei challenge

    doi: 10.1186/s13071-017-2569-7

    Figure Lengend Snippet: Summary of processing and mapping statistics of RNA-Seq reads from teneral female G. pallidipes gut and carcass 24 or 48 h post-challenge with T. b. brucei

    Article Snippet: The differential expression (DE; differences in expression of transcripts between RNA-Seq libraries) profiles of the transcripts were determined using the RNA-Seq analysis module in the CLC genomic workbench version 8.0 (CLC Bio, Aarhus, Denmark) as described [ ].

    Techniques: RNA Sequencing Assay